Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.9.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00698	0.699
27DAP/17DAP	1.67325	0.842
39DAP/27DAP	0.77394	0.487
41DAP/39DAP	1.89839	0.321
42DAP/41DAP	0.80006	0.774
43DAP/42DAP	0.89066	0.834
47DAP/43DAP	1.14795	0.889
52DAP/47DAP	1.21591	0.794
57DAP/52DAP	0.89112	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9528	0.412
17DAP/reference	1.06798	0.342
27DAP/reference	1.06814	0.375
39DAP/reference	1.2377	0.054
41DAP/reference	1.1146	0.265
42DAP/reference	0.92124	0.103
43DAP/reference	1.04625	0.758
47DAP/reference	1.02404	1
52DAP/reference	0.9143	0.244
57DAP/reference	1.06435	0.643

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99507	0.826
27DAP/17DAP	1.00952	1
39DAP/27DAP	1.17384	0.174
41DAP/39DAP	1.01537	1
42DAP/41DAP	0.92904	0.515
43DAP/42DAP	0.91264	0.216
47DAP/43DAP	1.04499	0.897
52DAP/47DAP	1.05107	0.933
57DAP/52DAP	0.97766	0.773
57DAP/7DAP	1.21974	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9253	0.246
17DAP/reference	0.86713	0.011
27DAP/reference	0.99056	0.614
39DAP/reference	0.90797	0.025
41DAP/reference	0.75794	0.02
42DAP/reference	0.68908	0.01
43DAP/reference	0.7567	0.014
47DAP/reference	0.84616	0.293
52DAP/reference	0.74667	0.033
57DAP/reference	0.72109	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31874	0.05
17DAP/reference	1.21657	0.026
27DAP/reference	1.09917	0.745
39DAP/reference	0.91356	0.221
41DAP/reference	1.01796	1
42DAP/reference	1.04863	1
43DAP/reference	1.47151	0.052
47DAP/reference	1.04529	0.527
52DAP/reference	1.21609	0.168
57DAP/reference	1.28926	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91207	0.087
17DAP/reference	0.95839	0.444
27DAP/reference	0.9177	0.195
39DAP/reference	0.87299	0.133
41DAP/reference	0.90262	0.096
42DAP/reference	0.84499	0.025
43DAP/reference	0.80114	0.037
47DAP/reference	1.17808	0.081
52DAP/reference	1.00695	0.763
57DAP/reference	0.76086	0.043

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01664	1
26DAP/20DAP	1.11043	0.62
34DAP/26DAP	1.03888	1
51DAP/34DAP	1.17197	0.73
52DAP/51DAP	0.81458	0.151
53DAP/52DAP	1.03062	1
55DAP/53DAP	1.02909	1
57DAP/55DAP	1.2015	0.694
62DAP/57DAP	0.99677	1
68DAP/62DAP	0.72538	0.04
68DAP/14DAP	0.90312	1

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09288	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.21452
Immature Eggplant/Mature Eggplant	2.04081
Ripe Pepper/Ripe Tomato	0.59059	1
Mature Eggplant/Ripe Tomato	1.4623	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.77498	0.536
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.15955
1-3/M82	N/A	N/A
2-1-1/M82	0.87093
2-1/M82	N/A	N/A
2-6/M82	1.08573
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.96581	1
6-2/M82	0.61796
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.86274
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.50952
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05516	1
IL12-4/WTpooled	1.17664	0.695
IL1-4/WTpooled	1.02173
WT/WTpooled	0.95214	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.05956	0.853

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99873	1
DC3000/delta hrp 6h	0.89584	0.95
DC3000/delta hrp 12h	1.05101	1
DC3000/delta hrp 24h	0.97598	0.875

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91638
DC3000 delta B/DC3000 delta AB	0.92591	0.497

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92356	1
Exp 36h	1.22519	1
Exp 60h	1.02082	1

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.05532	1
Var 0h	1.06278	1
Var 12h I row2-row1	1.23538	0.348
Var 12h NI row2-row1	0.93563	0.443
Var 36h I row2-row1	0.76707	0.805
Var 36h NI row2-row1	0.96599	0.791
Var 60h I row2-row1	1.0089	1
Var 60h NI row2-row1	1.0937	1
Time course 0hI-0hNI	1.0804	0.833
Time course 12hI-12hNI	1.03219	0.747
Time course 36hI-36hNI	0.96255	0.337
Time course 60hI-60hNI	1.02141	1

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.26681	0.277
transgenic ySAMdc/azygous control (breaker)	0.89404	0.49
transgenic ySAMdc/azygous control (red)	0.83599	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04456	0.148

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88123	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87976	1
Manapal/WT (break)	0.97661	1
Manapal/WT (red)	0.86913	0.181